Scheda di dettaglio – i prodotti della ricerca
| Dato | Valore |
|---|---|
| Title | Does a barcoding gap exist in prokaryotes? Evidences from species delimitation in cyanobacteria |
| Abstract | The amount of information that is available on 16S rRNA sequences for prokaryotes thanks to high-throughput sequencing could allow a better understanding of diversity. Nevertheless, the application of predetermined threshold in genetic distances to identify units of diversity (Operative Taxonomic Units, OTUs) may provide biased results. Here we tests for the existence of a barcoding gap in several groups of Cyanobacteria, defining units of diversity according to clear differences between within-species and among-species genetic distances in 16S rRNA. The application of a tool developed for animal DNA taxonomy, the Automatic Barcode Gap Detector (ABGD), revealed that a barcoding gap could actually be found in almost half of the datasets that we tested. The identification of units of diversity through this method provided results that were not compatible with those obtained with the identification of OTUs with threshold of similarity in genetic distances of 97% or 99%. The main message of our results is a call for caution in the estimate of diversity from 16S sequences only, given that different subjective choices in the method to delimit units could provide different results. |
| Source | Life (Basel) 5 (1), pp. 50–64 |
| Keywords | CyanobacteriaDNA barcodingOperational taxonomic unitsSpecies in prokaryotesTaxonomy |
| Journal | Life (Basel) |
| Editor | Molecular Diversity Preservation International, Basel, |
| Year | 2015 |
| Type | Articolo in rivista |
| DOI | 10.3390/life5010050 |
| Authors | Eckert, Ester M.; Fontaneto, Diego; Coci, Manuela; Callieri, Cristiana |
| Text | 320313 2015 10.3390/life5010050 Scopus 2 s2.0 84922064466 Cyanobacteria DNA barcoding Operational taxonomic units Species in prokaryotes Taxonomy Does a barcoding gap exist in prokaryotes Evidences from species delimitation in cyanobacteria Eckert, Ester M.; Fontaneto, Diego; Coci, Manuela; Callieri, Cristiana Consiglio Nazionale delle Ricerche The amount of information that is available on 16S rRNA sequences for prokaryotes thanks to high throughput sequencing could allow a better understanding of diversity. Nevertheless, the application of predetermined threshold in genetic distances to identify units of diversity Operative Taxonomic Units, OTUs may provide biased results. Here we tests for the existence of a barcoding gap in several groups of Cyanobacteria, defining units of diversity according to clear differences between within species and among species genetic distances in 16S rRNA. The application of a tool developed for animal DNA taxonomy, the Automatic Barcode Gap Detector ABGD , revealed that a barcoding gap could actually be found in almost half of the datasets that we tested. The identification of units of diversity through this method provided results that were not compatible with those obtained with the identification of OTUs with threshold of similarity in genetic distances of 97% or 99%. The main message of our results is a call for caution in the estimate of diversity from 16S sequences only, given that different subjective choices in the method to delimit units could provide different results. 5 Published version http //www.mdpi.com/2075 1729/5/1/50 Eckert et al 2015 life_05_00050.pdf Articolo in rivista Molecular Diversity Preservation International 2075 1729 Life Basel Life Basel Life Basel Life. Basel estermaria.eckert ECKERT ESTER MARIA cristiana.callieri CALLIERI CRISTIANA manuela.coci COCI MANUELA diego.fontaneto FONTANETO DIEGO |